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Items: 22

1.

DNA-binding miniproteins based on zinc fingers. Assessment of the interaction using nanopores.

Rodríguez J, Learte-Aymamí S, Mosquera J, Celaya G, Rodríguez-Larrea D, Vázquez ME, Mascareñas JL.

Chem Sci. 2018 Apr 10;9(17):4118-4123. doi: 10.1039/c7sc05441f. eCollection 2018 May 7.

2.

Label-Free, Multiplexed, Single-Molecule Analysis of Protein-DNA Complexes with Nanopores.

Celaya G, Perales-Calvo J, Muga A, Moro F, Rodriguez-Larrea D.

ACS Nano. 2017 Jun 27;11(6):5815-5825. doi: 10.1021/acsnano.7b01434. Epub 2017 May 31.

PMID:
28530800
3.

Protein co-translocational unfolding depends on the direction of pulling.

Rodriguez-Larrea D, Bayley H.

Nat Commun. 2014 Sep 8;5:4841. doi: 10.1038/ncomms5841.

4.

Single-molecule site-specific detection of protein phosphorylation with a nanopore.

Rosen CB, Rodriguez-Larrea D, Bayley H.

Nat Biotechnol. 2014 Feb;32(2):179-81. doi: 10.1038/nbt.2799. Epub 2014 Jan 19.

5.

Intrinsically disordered protein threads through the bacterial outer-membrane porin OmpF.

Housden NG, Hopper JT, Lukoyanova N, Rodriguez-Larrea D, Wojdyla JA, Klein A, Kaminska R, Bayley H, Saibil HR, Robinson CV, Kleanthous C.

Science. 2013 Jun 28;340(6140):1570-4. doi: 10.1126/science.1237864.

6.

Multistep protein unfolding during nanopore translocation.

Rodriguez-Larrea D, Bayley H.

Nat Nanotechnol. 2013 Apr;8(4):288-95. doi: 10.1038/nnano.2013.22. Epub 2013 Mar 10.

7.

The peripheral binding of 14-3-3γ to membranes involves isoform-specific histidine residues.

Bustad HJ, Skjaerven L, Ying M, Halskau Ø, Baumann A, Rodriguez-Larrea D, Costas M, Underhaug J, Sanchez-Ruiz JM, Martinez A.

PLoS One. 2012;7(11):e49671. doi: 10.1371/journal.pone.0049671. Epub 2012 Nov 26.

8.

Role of conservative mutations in protein multi-property adaptation.

Rodriguez-Larrea D, Perez-Jimenez R, Sanchez-Romero I, Delgado-Delgado A, Fernandez JM, Sanchez-Ruiz JM.

Biochem J. 2010 Jul 15;429(2):243-9. doi: 10.1042/BJ20100386.

9.

Proteolytic scanning calorimetry: a novel methodology that probes the fundamental features of protein kinetic stability.

Tur-Arlandis G, Rodriguez-Larrea D, Ibarra-Molero B, Sanchez-Ruiz JM.

Biophys J. 2010 Mar 17;98(6):L12-4. doi: 10.1016/j.bpj.2009.11.028.

10.

Modulation of buried ionizable groups in proteins with engineered surface charge.

Pey AL, Rodriguez-Larrea D, Gavira JA, Garcia-Moreno B, Sanchez-Ruiz JM.

J Am Chem Soc. 2010 Feb 3;132(4):1218-9. doi: 10.1021/ja909298v.

PMID:
20055447
11.

Using multi-objective computational design to extend protein promiscuity.

Suarez M, Tortosa P, Garcia-Mira MM, Rodríguez-Larrea D, Godoy-Ruiz R, Ibarra-Molero B, Sanchez-Ruiz JM, Jaramillo A.

Biophys Chem. 2010 Mar;147(1-2):13-9. doi: 10.1016/j.bpc.2009.12.003. Epub 2010 Jan 19.

PMID:
20034725
12.

Three-way interaction between 14-3-3 proteins, the N-terminal region of tyrosine hydroxylase, and negatively charged membranes.

Halskau Ø Jr, Ying M, Baumann A, Kleppe R, Rodriguez-Larrea D, Almås B, Haavik J, Martinez A.

J Biol Chem. 2009 Nov 20;284(47):32758-69. doi: 10.1074/jbc.M109.027706. Epub 2009 Sep 28.

13.

Diversity of chemical mechanisms in thioredoxin catalysis revealed by single-molecule force spectroscopy.

Perez-Jimenez R, Li J, Kosuri P, Sanchez-Romero I, Wiita AP, Rodriguez-Larrea D, Chueca A, Holmgren A, Miranda-Vizuete A, Becker K, Cho SH, Beckwith J, Gelhaye E, Jacquot JP, Gaucher EA, Sanchez-Ruiz JM, Berne BJ, Fernandez JM.

Nat Struct Mol Biol. 2009 Aug;16(8):890-6. doi: 10.1038/nsmb.1627. Epub 2009 Jul 13. Erratum in: Nat Struct Mol Biol. 2009 Dec;16(12):1331. Gaucher, Eric [corrected to Gaucher, Eric A].

14.

Protein-protein interactions at an enzyme-substrate interface: characterization of transient reaction intermediates throughout a full catalytic cycle of Escherichia coli thioredoxin reductase.

Negri A, Rodríguez-Larrea D, Marco E, Jiménez-Ruiz A, Sánchez-Ruiz JM, Gago F.

Proteins. 2010 Jan;78(1):36-51. doi: 10.1002/prot.22490.

PMID:
19585660
15.

Between-species variation in the kinetic stability of TIM proteins linked to solvation-barrier free energies.

Costas M, Rodríguez-Larrea D, De Maria L, Borchert TV, Gómez-Puyou A, Sanchez-Ruiz JM.

J Mol Biol. 2009 Jan 23;385(3):924-37. doi: 10.1016/j.jmb.2008.10.056. Epub 2008 Oct 28.

PMID:
18992756
16.

Force-clamp spectroscopy detects residue co-evolution in enzyme catalysis.

Perez-Jimenez R, Wiita AP, Rodriguez-Larrea D, Kosuri P, Gavira JA, Sanchez-Ruiz JM, Fernandez JM.

J Biol Chem. 2008 Oct 3;283(40):27121-9. doi: 10.1074/jbc.M803746200. Epub 2008 Aug 7.

17.

Structural basis of human triosephosphate isomerase deficiency: mutation E104D is related to alterations of a conserved water network at the dimer interface.

Rodríguez-Almazán C, Arreola R, Rodríguez-Larrea D, Aguirre-López B, de Gómez-Puyou MT, Pérez-Montfort R, Costas M, Gómez-Puyou A, Torres-Larios A.

J Biol Chem. 2008 Aug 22;283(34):23254-63. doi: 10.1074/jbc.M802145200. Epub 2008 Jun 18.

18.

Engineering proteins with tunable thermodynamic and kinetic stabilities.

Pey AL, Rodriguez-Larrea D, Bomke S, Dammers S, Godoy-Ruiz R, Garcia-Mira MM, Sanchez-Ruiz JM.

Proteins. 2008 Apr;71(1):165-74.

PMID:
17932922
19.

Beyond Lumry-Eyring: an unexpected pattern of operational reversibility/irreversibility in protein denaturation.

Rodriguez-Larrea D, Ibarra-Molero B, de Maria L, Borchert TV, Sanchez-Ruiz JM.

Proteins. 2008 Jan 1;70(1):19-24.

PMID:
17640069
20.

Natural selection for kinetic stability is a likely origin of correlations between mutational effects on protein energetics and frequencies of amino acid occurrences in sequence alignments.

Godoy-Ruiz R, Ariza F, Rodriguez-Larrea D, Perez-Jimenez R, Ibarra-Molero B, Sanchez-Ruiz JM.

J Mol Biol. 2006 Oct 6;362(5):966-78. Epub 2006 Jul 31.

PMID:
16935299
21.

Energetic and structural consequences of desolvation/solvation barriers to protein folding/unfolding assessed from experimental unfolding rates.

Rodriguez-Larrea D, Ibarra-Molero B, Sanchez-Ruiz JM.

Biophys J. 2006 Sep 1;91(5):L48-50. Epub 2006 Jun 23.

22.

Role of solvation barriers in protein kinetic stability.

Rodriguez-Larrea D, Minning S, Borchert TV, Sanchez-Ruiz JM.

J Mol Biol. 2006 Jul 14;360(3):715-24. Epub 2006 May 19.

PMID:
16784752

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